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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ) $local_species = 'cfa' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ) $local_species = 'cfa' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ) $local_species = 'cla' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ) $local_species = 'cla' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ) $local_species = 'lja' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ) $local_species = 'lja' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ) $local_species = 'rch' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ) $local_species = 'rch' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $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' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ) $local_species = 'vvi' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ), 'gf_id' => 'HOM05D001004', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001004' ), 'data_identifier' => 'HOM05D001004', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001004', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '603', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p36440' => 'bna', 'A03p21690' => 'bna', 'A04p14760' => 'bna', 'A04p29640' => 'bna', 'A04p29650' => 'bna', 'A05p31090' => 'bna', 'A06p47800' => 'bna', 'Aa31LG5G20810' => 'aar', 'Aa31LG5G3620' => 'aar', 'Actinidia05460' => 'ach', 'Actinidia08436' => 'ach', 'Actinidia08437' => 'ach', 'AL4G36170' => 'aly', 'AL4G36210' => 'aly', 'AL8G16720' => 'aly', 'AL8G16730' => 'aly', 'Aqoxy117s001' => 'aox', 'Aqoxy3G01749' => 'aox', 'arahy.Tifrunner.gnm1.ann1.AUM5GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KV3BZC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M1DDN9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T5EZBY' => 'arhy', 'AT2G38870' => 'ath', 'AT2G38900' => 'ath', 'AT3G46860' => 'ath', 'AT5G43570' => 'ath', 'AT5G43580' => 'ath', 'Atru.chr2.229' => 'acertr', 'Atru.chr4.1919' => 'acertr', 'Atru.chr4.2204' => 'acertr', 'Atru.chr4.2205' => 'acertr', 'Atru.chr4.2206' => 'acertr', 'Atru.chr4.2207' => 'acertr', 'Atru.chr4.2208' => 'acertr', 'Atru.chr5.1613' => 'acertr', 'AUR62000561' => 'cqu', 'AUR62006912' => 'cqu', 'AUR62006913' => 'cqu', 'AUR62010425' => 'cqu', 'AUR62011909' => 'cqu', 'AUR62011910' => 'cqu', 'AUR62011911' => 'cqu', 'AUR62016796' => 'cqu', 'AUR62032222' => 'cqu', 'AUR62032224' => 'cqu', 'AUR62032225' => 'cqu', 'AUR62032226' => 'cqu', 'BcaB01g03622' => 'bca', 'BcaB07g30343' => 'bca', 'BcaC02g07440' => 'bca', 'BcaC02g08941' => 'bca', 'BcaC03g17566' => 'bca', 'BcaC06g30596' => 'bca', 'BcaC06g31688' => 'bca', 'BcaC06g34643' => 'bca', 'BolC3t14835H' => 'bol', 'BolC3t14955H' => 'bol', 'BolC4t26457H' => 'bol', 'BolC4t28194H' => 'bol', 'BolC4t28195H' => 'bol', 'BolC7t43147H' => 'bol', 'BraA02t08640Z' => 'bra', 'BraA03t11404Z' => 'bra', 'BraA04t17113Z' => 'bra', 'BraA04t18430Z' => 'bra', 'BraA04t18431Z' => 'bra', 'BraA05t21950Z' => 'bra', 'BraA06t27650Z' => 'bra', 'C02p55360' => 'bna', 'C03p25690' => 'bna', 'C04p48660' => 'bna', 'C04p48670' => 'bna', 'C04p66930' => 'bna', 'C04p66940' => 'bna', 'CAN.G1098.2' => 'can', 'CAN.G1837.2' => 'can', 'CAN.G1871.1' => 'can', 'CAN.G859.1' => 'can', 'CANSAT78G0302' => 'cansat', 'CARHR133590' => 'chi', 'CARHR133600' => 'chi', 'CARHR155430' => 'chi', 'CARHR180000' => 'chi', 'CARHR180010' => 'chi', 'CARHR180030' => 'chi', 'CARHR181290' => 'chi', 'Carub.0003s2826' => 'cru', 'Carub.0004s2089' => 'cru', 'Carub.0004s2090' => 'cru', 'Carub.0004s2093' => 'cru', 'Carub.0008s0504' => 'cru', 'Carub.0008s0505' => 'cru', 'Carub.0008s0506' => 'cru', 'Carub.0008s0507' => 'cru', 'Cc03_g04970' => 'ccan', 'Cc03_g04980' => 'ccan', 'Cc07_g18340' => 'ccan', 'CDE02G1758' => 'cde', 'CDE03G0139' => 'cde', 'CDE03G0306' => 'cde', 'CDE03G0400' => 'cde', 'Cfa002172' => 'cfa', 'Cfa005539' => 'cfa', 'Cfa006068' => 'cfa', 'Cfa008366' => 'cfa', 'Cfa008367' => 'cfa', 'Ciclev10006203m.g' => 'ccl', 'Ciclev10006211m.g' => 'ccl', 'Ciclev10006212m.g' => 'ccl', 'Ciclev10006306m.g' => 'ccl', 'Ciclev10006680m.g' => 'ccl', 'Ciclev10007022m.g' => 'ccl', 'Ciclev10007070m.g' => 'ccl', 'Ciclev10007123m.g' => 'ccl', 'Ciclev10022906m.g' => 'ccl', 'Ciclev10022909m.g' => 'ccl', 'Ciclev10023822m.g' => 'ccl', 'CiPaw.01G189500' => 'cil', 'CiPaw.01G189600' => 'cil', 'CiPaw.01G189700' => 'cil', 'CiPaw.04G183600' => 'cil', 'CiPaw.04G183700' => 'cil', 'CiPaw.04G183800' => 'cil', 'ClCG02G012910' => 'cla', 'ClCG04G001650' => 'cla', 'ClCG05G004510' => 'cla', 'ClCG05G004540' => 'cla', 'ClCG05G004550' => 'cla', 'ClCG05G004560' => 'cla', 'ClCG06G013020' => 'cla', 'ClCG06G013030' => 'cla', 'ClCG07G000730' => 'cla', 'ClCG07G000740' => 'cla', 'ClCG07G000750' => 'cla', 'ClCG07G000770' => 'cla', 'ClCG09G008110' => 'cla', 'COL.COLO4_00070' => 'col', 'COL.COLO4_05576' => 'col', 'COL.COLO4_05577' => 'col', 'COL.COLO4_05579' => 'col', 'COL.COLO4_05580' => 'col', 'COL.COLO4_05581' => 'col', 'COL.COLO4_05582' => 'col', 'COL.COLO4_12152' => 'col', 'COL.COLO4_12153' => 'col', 'COL.COLO4_12156' => 'col', 'COL.COLO4_12159' => 'col', 'COL.COLO4_12160' => 'col', 'COL.COLO4_12161' => 'col', 'COL.COLO4_20741' => 'col', 'COL.COLO4_26342' => 'col', 'COL.COLO4_35913' => 'col', 'COL.COLO4_38468' => 'col', 'COL.COLO4_38469' => 'col', 'COL.COLO4_38470' => 'col', 'COL.COLO4_38471' => 'col', 'CsaV3_1G045190' => 'csa', 'CsaV3_2G017000' => 'csa', 'CsaV3_3G012440' => 'csa', 'CsaV3_3G012450' => 'csa', 'CsaV3_3G012470' => 'csa', 'CsaV3_3G012490' => 'csa', 'CsaV3_3G012530' => 'csa', 'CsaV3_3G012540' => 'csa', 'CsaV3_5G013330' => 'csa', 'CsaV3_5G013360' => 'csa', 'CsaV3_5G014630' => 'csa', 'CsaV3_7G026940' => 'csa', 'CSS0005649' => 'camsi', 'CSS0007138' => 'camsi', 'CSS0013364' => 'camsi', 'CSS0019702' => 'camsi', 'CSS0028717' => 'camsi', 'CSS0031008' => 'camsi', 'CSS0039273' => 'camsi', 'DCAR_011990' => 'dca', 'DCAR_011991' => 'dca', 'DCAR_011992' => 'dca', 'DCAR_011993' => 'dca', 'DCAR_011994' => 'dca', 'DCAR_024231' => 'dca', 'DCAR_024232' => 'dca', 'DCAR_027284' => 'dca', 'Dinv44642' => 'din', 'Dinv44643' => 'din', 'Dinv44644' => 'din', 'Duzib114G0002' => 'dzi', 'Duzib114G0743' => 'dzi', 'ECA238G0152' => 'eca', 'ECA240G4666' => 'eca', 'ECA248G1252' => 'eca', 'EL10Ac5g10437' => 'bvu', 'EL10Ac5g10438' => 'bvu', 'EL10Ac5g10439' => 'bvu', 'EL10Ac5g10440' => 'bvu', 'EL10Ac5g10441' => 'bvu', 'EL10Ac8g18696' => 'bvu', 'EL10As3g23298' => 'bvu', 'Eucgr.B01872' => 'egr', 'Eucgr.B01966' => 'egr', 'Eucgr.C02276' => 'egr', 'Eucgr.D01653' => 'egr', 'Eucgr.F00210' => 'egr', 'Eucgr.F00211' => 'egr', 'Eucgr.F04168' => 'egr', 'Eucgr.H00190' => 'egr', 'Eucgr.H02107' => 'egr', 'Eucgr.H05126' => 'egr', 'Eucgr.H05137' => 'egr', 'Eucgr.H05147' => 'egr', 'Eucgr.I00166' => 'egr', 'Eucgr.I00167' => 'egr', 'FAN12G0040' => 'fan', 'FAN12G2763' => 'fan', 'FAN12G3874' => 'fan', 'FAN12G4048' => 'fan', 'FAN12G4135' => 'fan', 'FAN12G4224' => 'fan', 'FAN17G0238' => 'fan', 'FAN17G0323' => 'fan', 'FAN17G0556' => 'fan', 'FAN17G0682' => 'fan', 'FAN17G1119' => 'fan', 'FAN17G1164' => 'fan', 'FAN17G1223' => 'fan', 'FAN17G2072' => 'fan', 'FAN17G2232' => 'fan', 'FAN17G2832' => 'fan', 'FAN19G3183' => 'fan', 'FAN26G2526' => 'fan', 'FAN28G2625' => 'fan', 'FvH4_1g16190' => 'fve', 'FvH4_4g02840' => 'fve', 'FvH4_4g02850' => 'fve', 'FvH4_4g02860' => 'fve', 'FvH4_4g02870' => 'fve', 'FvH4_4g02880' => 'fve', 'FvH4_4g02930' => 'fve', 'FvH4_4g02940' => 'fve', 'Glyma.09G103800' => 'gma', 'Glyma.10G184600' => 'gma', 'Glyma.10G184700' => 'gma', 'Glyma.13G120600' => 'gma', 'Glyma.20G205700' => 'gma', 'Glyma.20G205800' => 'gma', 'Glyma.20G205900' => 'gma', 'Gohir.A05G281700' => 'ghi', 'Gohir.A05G281800' => 'ghi', 'Gohir.A05G281850' => 'ghi', 'Gohir.A05G295300' => 'ghi', 'Gohir.A11G128300' => 'ghi', 'Gohir.A11G128400' => 'ghi', 'Gohir.A11G128500' => 'ghi', 'Gohir.D05G283088' => 'ghi', 'Gohir.D05G296000' => 'ghi', 'Gohir.D11G134150' => 'ghi', 'Gohir.D11G134200' => 'ghi', 'Gohir.D11G134300' => 'ghi', 'Gohir.D11G134350' => 'ghi', 'Gorai.007G143400' => 'gra', 'Gorai.007G143500' => 'gra', 'Gorai.007G143600' => 'gra', 'Gorai.007G143700' => 'gra', 'Gorai.009G297200' => 'gra', 'Gorai.009G297300' => 'gra', 'Gorai.009G297400' => 'gra', 'Gorai.009G312600' => 'gra', 'GSVIVG01018137001' => 'vvi', 'GSVIVG01018139001' => 'vvi', 'GSVIVG01018141001' => 'vvi', 'GSVIVG01018142001' => 'vvi', 'GSVIVG01032743001' => 'vvi', 'HanXRQChr01g0005211' => 'han', 'HanXRQChr01g0005401' => 'han', 'HanXRQChr01g0005421' => 'han', 'HanXRQChr01g0005431' => 'han', 'HanXRQChr01g0007271' => 'han', 'HanXRQChr01g0007281' => 'han', 'HanXRQChr01g0007291' => 'han', 'HanXRQChr01g0007301' => 'han', 'HanXRQChr01g0007331' => 'han', 'HanXRQChr01g0007341' => 'han', 'HanXRQChr01g0007351' => 'han', 'HanXRQChr01g0007401' => 'han', 'HanXRQChr01g0014511' => 'han', 'HanXRQChr01g0014521' => 'han', 'HanXRQChr01g0014531' => 'han', 'HanXRQChr01g0014541' => 'han', 'HanXRQChr01g0014551' => 'han', 'HanXRQChr01g0014571' => 'han', 'HanXRQChr13g0424341' => 'han', 'HanXRQChr13g0424351' => 'han', 'HanXRQChr13g0424371' => 'han', 'HanXRQChr13g0424391' => 'han', 'HanXRQChr13g0424431' => 'han', 'Haze_01631' => 'cav', 'Haze_10651' => 'cav', 'Haze_10653' => 'cav', 'Haze_11313' => 'cav', 'Haze_11314' => 'cav', 'Haze_19482' => 'cav', 'Haze_24569' => 'cav', 'Hma1.2p1_0310F.1_g120850' => 'hma', 'Hma1.2p1_0310F.1_g120860' => 'hma', 'Hma1.2p1_0310F.1_g120870' => 'hma', 'Hma1.2p1_0310F.1_g120880' => 'hma', 'Hma1.2p1_0310F.1_g120940' => 'hma', 'Hma1.2p1_0310F.1_g120950' => 'hma', 'Hma1.2p1_0650F.1_g195520' => 'hma', 'Hma1.2p1_0650F.1_g195540' => 'hma', 'HPP92_016901' => 'vpl', 'Hund02894' => 'sun', 'Lalb_Chr02g0150361' => 'lal', 'Lalb_Chr02g0150371' => 'lal', 'Lalb_Chr21g0312251' => 'lal', 'Lalb_Chr21g0312271' => 'lal', 'Lj5g0001616' => 'lja', 'Lj5g0009601' => 'lja', 'Lj5g0010722' => 'lja', 'Lj5g0018869' => 'lja', 'Lsat_1_v5_gn_0_14240' => 'lsa', 'Lsat_1_v5_gn_1_35961' => 'lsa', 'Lsat_1_v5_gn_3_122520' => 'lsa', 'Lsat_1_v5_gn_3_123400' => 'lsa', 'Lsat_1_v5_gn_7_33200' => 'lsa', 'Manes.04G036766' => 'mes', 'Manes.05G086318' => 'mes', 'Manes.05G086322' => 'mes', 'Manes.05G086324' => 'mes', 'Manes.05G086328' => 'mes', 'Manes.05G086329' => 'mes', 'Manes.05G086331' => 'mes', 'Manes.05G086336' => 'mes', 'Manes.05G086337' => 'mes', 'Manes.05G086346' => 'mes', 'Manes.05G086355' => 'mes', 'Manes.05G086372' => 'mes', 'Manes.05G086373' => 'mes', 'Manes.05G086390' => 'mes', 'Manes.05G086392' => 'mes', 'Manes.05G086394' => 'mes', 'Manes.05G086408' => 'mes', 'Manes.05G086444' => 'mes', 'Manes.05G086462' => 'mes', 'Manes.05G086480' => 'mes', 'Manes.15G037300' => 'mes', 'MBI04_g22607_MAGBIO' => 'mbi', 'MBI04_g22609_MAGBIO' => 'mbi', 'MBI11_g29578_MAGBIO' => 'mbi', 'MD05G1203000' => 'mdo', 'MD13G1208300' => 'mdo', 'MD13G1208400' => 'mdo', 'MD13G1208500' => 'mdo', 'MD13G1208700' => 'mdo', 'MD13G1208800' => 'mdo', 'MD15G1392900' => 'mdo', 'MD16G1210300' => 'mdo', 'MD16G1210400' => 'mdo', 'Medtr1g070330' => 'mtr', 'Medtr1g070335' => 'mtr', 'Medtr1g075340' => 'mtr', 'Medtr1g075380' => 'mtr', 'Medtr1g075410' => 'mtr', 'Medtr5g045470' => 'mtr', 'Medtr5g090250' => 'mtr', 'MELO3C000685.2' => 'cme', 'MELO3C006456.2' => 'cme', 'MELO3C006458.2' => 'cme', 'MELO3C006462.2' => 'cme', 'MELO3C006464.2' => 'cme', 'MELO3C006465.2' => 'cme', 'MELO3C018347.2' => 'cme', 'MELO3C018349.2' => 'cme', 'MELO3C020883.2' => 'cme', 'MELO3C029118.2' => 'cme', 'MELO3C031605.2' => 'cme', 'MELO3C031606.2' => 'cme', 'MELO3C031607.2' => 'cme', 'MELO3C031667.2' => 'cme', 'MELO3C031670.2' => 'cme', 'MELO3C034585.2' => 'cme', 'MELO3C034586.2' => 'cme', 'MELO3C034592.2' => 'cme', 'Migut.A00975' => 'egut', 'Migut.A00976' => 'egut', 'Migut.A00977' => 'egut', 'Migut.A00978' => 'egut', 'Migut.A00979' => 'egut', 'Migut.C00658' => 'egut', 'Migut.C00659' => 'egut', 'Migut.D00398' => 'egut', 'Migut.D00399' => 'egut', 'Migut.D00400' => 'egut', 'Migut.F00732' => 'egut', 'Migut.L00816' => 'egut', 'Migut.L00983' => 'egut', 'Migut.N02024' => 'egut', 'Migut.N02177' => 'egut', 'Nitab4.5_0000302g0080' => 'nta', 'Nitab4.5_0000754g0140' => 'nta', 'Nitab4.5_0000754g0170' => 'nta', 'Nitab4.5_0003154g0030' => 'nta', 'Nitab4.5_0006346g0020' => 'nta', 'Nitab4.5_0013087g0020' => 'nta', 'Nn1g02639' => 'nnu', 'Nn3g18474' => 'nnu', 'Nn3g18475' => 'nnu', 'Nn3g19560' => 'nnu', 'Oeu002604.1' => 'oeu', 'Oeu017833.1' => 'oeu', 'Oeu017841.1' => 'oeu', 'Oeu017848.1' => 'oeu', 'Oeu017850.1' => 'oeu', 'Oeu017852.1' => 'oeu', 'Oeu032586.1' => 'oeu', 'Os11g0279750' => 'osa', 'Peaxi162Scf00325g00711' => 'pax', 'Peaxi162Scf00714g00213' => 'pax', 'Peaxi162Scf00714g00217' => 'pax', 'PGR004G0313' => 'pgr', 'PGR004G0366' => 'pgr', 'PGR004G0546' => 'pgr', 'PGR004G0665' => 'pgr', 'PGR004G1723' => 'pgr', 'PGR004G1725' => 'pgr', 'PGR102G1398' => 'pgr', 'PGR102G1734' => 'pgr', 'PGSC0003DMG400003056' => 'stu', 'PGSC0003DMG400012089' => 'stu', 'PGSC0003DMG400017587' => 'stu', 'PGSC0003DMG400017588' => 'stu', 'Phvul.007G125500' => 'pvu', 'Phvul.009G203600' => 'pvu', 'Potri.002G042300' => 'ptr', 'Potri.005G221000' => 'ptr', 'Potri.006G212000' => 'ptr', 'Potri.006G212200' => 'ptr', 'Potri.009G028300' => 'ptr', 'Potri.010G075200' => 'ptr', 'Potri.010G075300' => 'ptr', 'Potri.010G075400' => 'ptr', 'Potri.010G075501' => 'ptr', 'Potri.010G075600' => 'ptr', 'Potri.010G075800' => 'ptr', 'Potri.011G110100' => 'ptr', 'Potri.011G110400' => 'ptr', 'Potri.016G078800' => 'ptr', 'Potri.016G078900' => 'ptr', 'Potri.016G079050' => 'ptr', 'Prupe.1G032000' => 'ppe', 'Prupe.1G032100' => 'ppe', 'Prupe.1G032400' => 'ppe', 'Prupe.1G032500' => 'ppe', 'Prupe.1G032700' => 'ppe', 'Prupe.1G032900' => 'ppe', 'Prupe.8G213200' => 'ppe', 'Prupe.8G228900' => 'ppe', 'Prupe.8G229000' => 'ppe', 'Prupe.8G229400' => 'ppe', 'Prupe.I000200' => 'ppe', 'Prupe.I000300' => 'ppe', 'Psat2g130960' => 'psa', 'Psat4g107840' => 'psa', 'PSO170G3861' => 'pso', 'PSO210G2978' => 'pso', 'PSO210G3122' => 'pso', 'PSO339G3429' => 'pso', 'PSO339G6102' => 'pso', 'PSO384G3535' => 'pso', 'PSO384G5145' => 'pso', 'PSO566G0151' => 'pso', 'PSO832G2150' => 'pso', 'QL06p015871' => 'qlo', 'QL06p015876' => 'qlo', 'QL06p015886' => 'qlo', 'QL06p015901' => 'qlo', 'RcHm_v2.0_Chr2g0105871' => 'rch', 'RcHm_v2.0_Chr4g0390821' => 'rch', 'RcHm_v2.0_Chr4g0390831' => 'rch', 'RcHm_v2.0_Chr4g0390841' => 'rch', 'RcHm_v2.0_Chr4g0390891' => 'rch', 'RcHm_v2.0_Chr4g0390911' => 'rch', 'RcHm_v2.0_Chr4g0390921' => 'rch', 'RcHm_v2.0_Chr4g0390951' => 'rch', 'RcHm_v2.0_Chr4g0390971' => 'rch', 'RcHm_v2.0_Chr4g0391001' => 'rch', 'RcHm_v2.0_Chr6g0294471' => 'rch', 'Sabra03G0145200' => 'sbr', 'Sabra05G0170000' => 'sbr', 'Sabra06G0163400' => 'sbr', 'Sabra10G0032900' => 'sbr', 'Sabra10G0033000' => 'sbr', 'Sabra10G0033100' => 'sbr', 'Sabra10G0033200' => 'sbr', 'Sabra10G0033300' => 'sbr', 'Sabra10G0033400' => 'sbr', 'Sabra10G0033500' => 'sbr', 'Sabra10G0033600' => 'sbr', 'Sabra11G0097900' => 'sbr', 'Sabra11G0098000' => 'sbr', 'Sabra16G0083100' => 'sbr', 'Sabra16G0083300' => 'sbr', 'Sabra16G0083500' => 'sbr', 'Sabra16G0083700' => 'sbr', 'Sabra16G0083900' => 'sbr', 'Sabra16G0084200' => 'sbr', 'Sabra16G0084500' => 'sbr', 'Sabra16G0084800' => 'sbr', 'Sabra16G0086000' => 'sbr', 'Sabra16G0086200' => 'sbr', 'Sabra16G0086400' => 'sbr', 'Sabra16G0086600' => 'sbr', 'Sabra16G0086800' => 'sbr', 'Sabra16G0086900' => 'sbr', 'SalBow6G1766' => 'sbo', 'SalBow6G2779' => 'sbo', 'SalBow6G2951' => 'sbo', 'SalBow6G3365' => 'sbo', 'SalBow6G3858' => 'sbo', 'SalBow6G4720' => 'sbo', 'SalBow6G4960' => 'sbo', 'SalBow6G5036' => 'sbo', 'SalBow6G5314' => 'sbo', 'SalBow6G5398' => 'sbo', 'SalBow6G6111' => 'sbo', 'SalBow6G7125' => 'sbo', 'SalBow6G7260' => 'sbo', 'Sed0000530' => 'sed', 'Sed0001107' => 'sed', 'Sed0001135' => 'sed', 'Sed0002681' => 'sed', 'Sed0008214' => 'sed', 'Sed0010846' => 'sed', 'Sed0011759' => 'sed', 'Sed0013106' => 'sed', 'Sed0016936' => 'sed', 'Sed0018468' => 'sed', 'Sed0019846' => 'sed', 'Sed0020085' => 'sed', 'Sed0020724' => 'sed', 'Sed0022274' => 'sed', 'Sed0022845' => 'sed', 'Sed0024867' => 'sed', 'Sed0027486' => 'sed', 'Sed0028183' => 'sed', 'SEGI_07667' => 'sgi', 'SEGI_18954' => 'sgi', 'SGA_v2.0_scaffold103G30002' => 'sas', 'Solyc08g080630.4' => 'sly', 'Solyc09g083430.3' => 'sly', 'Solyc09g083435.1' => 'sly', 'Solyc09g084450.3' => 'sly', 'Solyc09g084460.3' => 'sly', 'Solyc09g084470.3' => 'sly', 'Solyc09g084480.3' => 'sly', 'Solyc09g084490.4' => 'sly', 'Solyc09g089530.3' => 'sly', 'Solyc10g086090.2' => 'sly', 'Solyc10g086100.2' => 'sly', 'Sopen08g028940' => 'spe', 'Sopen09g032370' => 'spe', 'Sopen09g032390' => 'spe', 'Sopen09g032410' => 'spe', 'Sopen09g032420' => 'spe', 'Sopen09g032430' => 'spe', 'Sopen10g035460' => 'spe', 'Sopen10g035470' => 'spe', 'Sp2g08390' => 'spa', 'Sp2g08400' => 'spa', 'Sp4g21250' => 'spa', 'TAR376G0093' => 'tar', 'TAR376G1036' => 'tar', 'TAR633G2777' => 'tar', 'TAR636G3448' => 'tar', 'THA.LOC104805628' => 'tha', 'THA.LOC104824172' => 'tha', 'THA.LOC109117082' => 'tha', 'Thecc.01G264300' => 'tca', 'Thecc.05G233000' => 'tca', 'Thecc.05G233200' => 'tca', 'Thecc.10G077500' => 'tca', 'Thecc.10G077700' => 'tca', 'Thecc.10G077800' => 'tca', 'Thecc.10G077900' => 'tca', 'Thecc.10G078100' => 'tca', 'Thecc.10G078200' => 'tca', 'Thecc.10G078300' => 'tca', 'Thhalv10003303m.g' => 'esa', 'Thhalv10003305m.g' => 'esa', 'Thhalv10003342m.g' => 'esa', 'Thhalv10011055m.g' => 'esa', 'Thhalv10011127m.g' => 'esa', 'Thhalv10017502m.g' => 'esa', 'TPR.G18577' => 'tpr', 'TPR.G31259' => 'tpr', 'TPR.G31260' => 'tpr', 'TPR.G31261' => 'tpr', 'TPR.G6174' => 'tpr', 'TPR.G9059' => 'tpr', 'TWI09G1179' => 'twi', 'TWI18G1440' => 'twi', 'vmacro02638' => 'vma', 'vmacro04752' => 'vma' ) $gf_id = 'HOM05D001004' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001004' ) $data_identifier = 'HOM05D001004' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 2, 'ach' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 2, 'arhy' => (int) 4, 'ath' => (int) 5, 'acertr' => (int) 8, 'cqu' => (int) 12, 'bca' => (int) 8, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 1, 'chi' => (int) 7, 'cru' => (int) 8, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 11, 'cil' => (int) 6, 'cla' => (int) 13, 'col' => (int) 20, 'csa' => (int) 12, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 3, 'dzi' => (int) 2, 'eca' => (int) 3, 'bvu' => (int) 7, 'egr' => (int) 14, 'fan' => (int) 19, 'fve' => (int) 8, 'gma' => (int) 7, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 23, 'cav' => (int) 7, 'hma' => (int) 8, 'vpl' => (int) 1, 'sun' => (int) 1, 'lal' => (int) 4, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 21, 'mbi' => (int) 3, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 18, 'egut' => (int) 15, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 1, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 4, 'pvu' => (int) 2, 'ptr' => (int) 16, 'ppe' => (int) 12, 'psa' => (int) 2, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 11, 'sbr' => (int) 27, 'sbo' => (int) 13, 'sed' => (int) 18, 'sgi' => (int) 2, 'sas' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 8, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 3, 'tca' => (int) 10, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 2, 'vma' => (int) 2 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro04752' $species_info = array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ) $local_species = 'vvi' $disabled = '' $selected = '' $num_hits = (int) 0